"Scan files are None, please check the data directory" about segmentation_metrics HOT 4 CLOSED

Hi Luan,

I fixed the issue. Now once you run “pip install seg-metrics --upgrade”, you can run you original code even you used the “~” sign in your path.

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Hi Luan,

Sorry for the late reply.

1. Normally the reason of the issue is that the file names of two folders are different. So the program did not know which prediction corresponded to which ground truth. Please check if you set the file name correctly.
2. It seems that you would like to calculate 20 pairs of cases, right? Then, you need to put 20 binary prediction to one folder, and put the other 20 binary ground truth to another folder. Note: the file names should be the same between the two folders. For instance, "prediction/1.nii, prediction/2.nii, ..." and "ground_truth/1.nii, ground_truth/2.nii, ..."
3. labels = [1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20] this line may be wrong. Because the labels should be [0,1] for binary image metrics calculation. 0 means backgournd and 1 means foreground if your ground truth and prediction is binarized with 0 and 1.

If you still have question please let me know.

from segmentation_metrics.

Hi Jingnan,

I did it !! That was the problem "~". (as you told me)
Thank you very much for everything.

Best,
Luan.

from segmentation_metrics.

Hi Jingnan,

Thank you very much !!!

from segmentation_metrics.